To cite package ‘tximport’ in publications use:

  Charlotte Soneson, Michael I. Love, Mark D. Robinson (2015):
  Differential analyses for RNA-seq: transcript-level estimates improve
  gene-level inferences. F1000Research

A BibTeX entry for LaTeX users is

  @Article{,
    title = {Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences},
    author = {Charlotte Soneson and Michael I. Love and Mark D. Robinson},
    year = {2015},
    journal = {F1000Research},
    doi = {10.12688/f1000research.7563.1},
    volume = {4},
    issue = {1521},
  }